Sp4 Sp4 transcription factor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sp4provided by RGD
Official Full Name: Sp4 transcription factorprovided by RGD
Primary source: RGD:3741
See related: Ensembl:ENSRNOG00000005472 AllianceGenome:RGD:3741
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: HF-1b
Summary: Enables DNA binding activity and DNA-binding transcription factor activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of heart contraction. Located in nucleus. Human ortholog(s) of this gene implicated in congenital heart disease and dilated cardiomyopathy. Orthologous to human SP4 (Sp4 transcription factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 144.3), Spleen (RPKM 123.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q33

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (145330416..145395750, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (139187458..139252741, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (146135877..146201344, complement)

Chromosome 6 - NC_086024.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Results suggest that the Sp4 gene in forebrain GABAergic neurons regulates ketamine-induced hyperlocomotion
Title: Restoration of Sp4 in Forebrain GABAergic Neurons Rescues Hypersensitivity to Ketamine in Sp4 Hypomorphic Mice.
Sp4 is in a position to transcriptionally regulate the balance between excitatory and inhibitory neurochemical expressions in neurons.
Title: Specificity protein 4 (Sp4) transcriptionally regulates inhibitory GABAergic receptors in neurons.
Store-operated calcium entry promotes the degradation of the transcription factor Sp4 in resting neurons.
Title: Store-operated calcium entry promotes the degradation of the transcription factor Sp4 in resting neurons.
Sp4 is regulated by NMDA-receptor-dependent activation of a protein phosphatase 1/2A signaling pathway. Reuglated control of SP4 activity is an important mechanism governing the developmental patterning of dendrites.
Title: Phosphorylation of the transcription factor Sp4 is reduced by NMDA receptor signaling.
Sp1 and Sp4 are bound to the candidate GC-box site region within the endogenous TRPV1 P2-promoter.
Title: Transcription factors Sp1 and Sp4 regulate TRPV1 gene expression in rat sensory neurons.
Data demonstrate that, during cerebellar granule neuron development, Sp4-dependent repression of neurotrophin-3 is required to limit dendritic branching and thereby promote acquisition of the mature dendritic pattern.
Title: Sp4-dependent repression of neurotrophin-3 limits dendritic branching.
Transcription factor Sp4 regulates dendritic patterning during cerebellar maturation.
Title: Transcription factor Sp4 regulates dendritic patterning during cerebellar maturation.
Sp1, Sp2 and Sp4 transcription factors play a role in activating cholesterol desmolase gene transcription in the nervous system, and Ku antigen may further augment this activation
Title: Transcriptional regulation of P450scc gene expression in the embryonic rodent nervous system.

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within regulation of heart contraction	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within_positive_effect regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: transcription factor Sp4

Names: HF-1b zinc finger protein; trans-acting transcription factor 4

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_012761.2 → NP_036893.1 transcription factor Sp4

See identical proteins and their annotated locations for NP_036893.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/TrEMBL

A0A8I6B4P2, A6KDM5, F7FMI9, Q63158

Related

ENSRNOP00000007625.4, ENSRNOT00000007625.6

Conserved Domains (4) summary

COG5048
Location:661 → 732

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:648 → 670

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:706 → 728

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:692 → 715

zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086024.1 Reference GRCr8

Range

145330416..145395750 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039111794.2 → XP_038967722.1 transcription factor Sp4 isoform X1

UniProtKB/TrEMBL

A0A8I6B4P2

Conserved Domains (4) summary

sd00017
Location:633 → 655

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:691 → 713

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:677 → 700

zf-H2C2_2; Zinc-finger double domain

cd22536
Location:15 → 632

SP4_N; N-terminal domain of transcription factor Specificity Protein (SP) 4
XM_063261556.1 → XP_063117626.1 transcription factor Sp4 isoform X3
XM_063261555.1 → XP_063117625.1 transcription factor Sp4 isoform X2